genome.fa.s6.2.7.7.80.10.50.1000.104.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  104  of  109  ( 13028 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33229777--33229876	45	2.2	45	81	8	107	52	2	15	31	1.54
33229894--33229932	10	3.8	10	86	3	51	48	0	2	48	1.15
33236713--33236851	21	6.6	22	71	12	87	21	17	15	46	1.84
33236750--33236879	42	3.1	42	76	4	111	18	16	16	47	1.83
33238058--33238102	24	2.0	24	86	8	67	42	17	4	35	1.70
33245706--33245875	83	2.0	85	87	4	247	32	11	27	28	1.91
33245818--33246012	46	4.2	46	95	0	345	35	9	25	29	1.88
33249524--33249874	175	2.0	175	96	1	641	35	10	16	37	1.83
33252119--33252148	7	4.3	7	100	0	60	13	0	43	43	1.43
33256227--33256256	2	15.0	2	100	0	60	50	0	0	50	1.00
33256462--33256497	2	18.0	2	100	0	72	50	0	0	50	1.00
33257868--33257919	25	2.1	26	82	7	63	59	3	0	36	1.16
33259187--33259238	25	2.1	26	82	7	63	59	3	0	36	1.16
33260506--33260557	25	2.1	26	82	7	63	59	3	0	36	1.16
33261825--33261876	25	2.1	26	82	7	63	59	3	0	36	1.16
33262655--33262685	12	2.5	13	89	10	55	38	0	16	45	1.47
33264601--33264643	24	1.9	21	86	13	59	39	2	2	55	1.25
33265880--33265920	21	2.0	21	85	0	55	46	2	0	51	1.14
33300326--33300365	20	2.0	20	90	9	64	45	2	22	30	1.66
33305089--33305128	15	2.7	15	85	11	55	65	5	0	30	1.14
33305094--33305130	15	2.4	16	95	4	67	67	5	0	27	1.12
33307042--33307075	3	11.3	3	100	0	68	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33309103--33309137	17	2.1	17	88	0	52	71	0	0	28	0.86
33316034--33316117	43	2.0	42	88	11	127	61	1	2	34	1.16
33323681--33323952	134	2.0	136	98	1	530	41	6	3	48	1.47
33325309--33325388	26	3.2	25	72	16	76	45	3	2	48	1.33
33332531--33332714	94	2.0	94	92	0	305	44	17	24	13	1.85
33337350--33337444	24	3.9	24	69	13	68	24	18	18	37	1.94
33338428--33338864	199	2.2	199	89	1	653	25	22	23	28	1.99
33344213--33344270	25	2.3	25	87	0	80	39	20	25	13	1.90
33344611--33344667	11	5.4	10	76	23	55	42	15	0	42	1.47
33344611--33344677	11	6.4	10	77	8	53	41	17	0	40	1.50
33344611--33344682	21	3.4	21	86	3	92	41	19	0	38	1.52
33345167--33345195	11	2.6	11	100	0	58	51	0	20	27	1.47
33346199--33346263	32	2.0	32	93	0	112	58	3	13	24	1.50
33348533--33348933	199	2.0	201	99	0	788	36	13	11	37	1.82
33349522--33349791	109	2.5	107	90	5	436	40	14	17	28	1.88
33349794--33350230	106	4.1	104	86	5	574	31	14	13	40	1.84
33373343--33373395	24	2.2	24	86	0	70	54	9	3	32	1.50
33375188--33375228	8	5.1	8	100	0	82	48	39	12	0	1.41
33381151--33381194	17	2.6	17	82	7	54	61	13	15	9	1.56
33385323--33385355	17	2.0	17	88	5	50	63	6	0	30	1.18
33389473--33389591	50	2.4	51	89	1	177	35	10	24	29	1.89
33391065--33391089	12	2.1	12	100	0	50	52	8	8	32	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33398308--33398358	18	2.7	20	77	20	63	19	0	3	76	0.94
33399338--33399410	26	2.9	25	81	16	89	72	0	5	21	1.04
33399346--33399409	4	15.5	4	78	18	53	73	0	4	21	1.01
33399346--33399402	22	2.6	22	79	17	66	73	0	5	21	1.02
33399346--33399410	17	3.9	16	75	16	69	73	0	4	21	1.00
33406511--33406545	17	2.0	18	88	5	54	22	0	2	74	0.95
33416242--33416347	54	2.0	54	89	7	166	17	27	13	41	1.87
33418635--33418681	10	4.8	10	76	12	53	27	4	0	68	1.08
33418657--33418706	24	2.0	24	88	3	73	30	4	0	66	1.10
33418711--33418945	117	2.0	118	99	0	463	39	11	14	34	1.81
33421233--33421316	42	2.0	42	95	2	152	42	9	1	46	1.44
33421247--33421311	20	3.2	20	67	30	55	44	9	1	44	1.45
33430119--33430146	8	3.5	8	100	0	56	10	0	10	78	0.96
33431754--33431832	36	2.2	35	80	10	88	50	2	2	44	1.29
33432137--33432168	10	3.2	10	95	0	55	18	0	6	75	1.01
33432146--33432179	17	1.9	17	94	5	59	20	0	2	76	0.92
33432137--33432182	10	5.1	9	84	10	51	19	0	4	76	0.96
33432189--33432239	24	2.1	24	81	0	57	31	1	1	64	1.15
33433392--33433470	40	1.9	41	82	10	99	34	10	7	48	1.65
33435453--33435527	31	2.4	31	80	8	89	37	8	9	45	1.66
33444237--33444277	16	2.5	17	84	7	50	60	4	19	14	1.51
33447389--33447414	5	5.2	5	100	0	52	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33450542--33450580	14	2.7	14	80	4	51	25	2	2	69	1.14
33450903--33450930	12	2.3	12	100	0	56	42	28	17	10	1.83
33458693--33458869	46	3.8	46	91	0	300	37	9	23	29	1.86
33461476--33461523	23	2.1	23	88	7	71	31	0	12	56	1.37
33461826--33461865	19	2.1	19	86	9	55	40	7	0	52	1.30
33464205--33464271	24	2.6	25	81	9	82	46	16	5	31	1.71
33473592--33473623	14	2.1	16	88	11	50	31	0	6	62	1.20
33474335--33474879	272	2.0	272	99	0	1081	39	10	7	43	1.66
33492821--33493012	93	2.1	93	87	5	273	34	22	11	31	1.90
33494475--33494509	17	2.1	17	89	10	54	28	0	0	71	0.86
33496224--33496258	17	2.1	17	89	10	54	28	0	0	71	0.86
33507304--33507382	17	4.7	17	74	14	67	50	5	1	43	1.32
33507288--33507387	50	2.1	47	81	10	121	51	4	4	41	1.39
33509804--33509829	5	5.2	5	100	0	52	42	19	19	19	1.90
33510573--33510607	9	3.9	9	88	0	52	34	11	11	42	1.77
33510663--33510693	9	3.4	9	90	0	53	38	22	12	25	1.90
33513973--33514020	11	4.5	11	72	27	50	50	0	2	47	1.12
33515721--33515787	27	2.5	27	82	4	82	41	8	4	44	1.56
33525733--33525799	27	2.5	27	82	4	82	41	8	4	44	1.56
33525857--33525923	27	2.5	27	92	4	109	26	29	28	14	1.96
33525968--33526101	4	34.0	4	76	14	86	69	0	28	2	1.00
33526001--33526146	41	3.7	40	77	15	158	66	0	32	1	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33525968--33526132	19	9.1	17	72	20	90	69	0	29	1	0.99
33525977--33526099	65	1.9	64	80	11	144	69	0	29	1	0.98
33525981--33526115	12	10.0	15	69	24	56	68	0	30	1	0.99
33526001--33526130	39	3.2	40	83	10	167	68	0	30	1	0.99
33526096--33526158	27	2.3	27	83	10	74	68	0	31	0	0.90
33526014--33526146	39	3.4	39	81	8	162	65	0	33	0	0.98
33525973--33526163	80	2.5	75	78	20	195	69	0	29	1	0.96
33526791--33526936	75	1.9	77	83	8	192	54	8	4	33	1.49
33530005--33530103	3	33.0	3	100	0	198	66	33	0	0	0.92
33530102--33530129	3	9.3	3	100	0	56	67	0	0	32	0.91
33530253--33530281	10	2.7	11	89	10	51	0	27	0	72	0.85
33530366--33530466	27	3.7	27	89	5	134	15	28	29	25	1.96
33530523--33530574	27	1.9	27	96	0	95	53	0	7	38	1.30
33530522--33530580	27	2.2	26	88	8	91	50	0	8	40	1.33
33536475--33536526	16	3.3	15	78	7	59	50	0	32	17	1.47
33536485--33536534	16	3.2	16	82	2	66	52	0	32	16	1.44
33536947--33537022	35	2.2	35	90	2	118	18	6	17	57	1.60
33542238--33542267	15	1.9	16	93	6	53	0	33	3	63	1.11
33544720--33544755	18	1.9	18	88	5	54	58	2	0	38	1.13
33545426--33545453	14	2.0	14	100	0	56	28	0	7	64	1.20
33545446--33545508	19	3.4	17	82	10	63	34	0	3	61	1.12
33545448--33545509	18	3.3	19	82	11	74	32	0	3	64	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33549415--33549463	25	1.9	25	83	4	62	40	0	4	55	1.19
33549459--33549533	7	11.0	7	78	12	68	45	1	12	41	1.49
33553066--33553105	19	2.1	19	85	4	53	60	2	2	35	1.24
33556199--33556400	100	2.0	100	99	0	395	27	20	14	37	1.92
33556743--33556794	21	2.5	21	77	0	59	34	34	5	25	1.80
33564072--33564102	15	2.1	15	100	0	62	51	0	0	48	1.00
33574964--33575042	2	40.5	2	92	5	126	0	45	1	53	1.08
33577580--33577610	3	10.7	3	93	6	55	29	0	0	70	0.87
33580257--33580312	22	2.6	22	75	10	62	58	0	1	39	1.08
33580257--33580311	15	3.7	15	78	7	51	60	0	1	38	1.08

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109